Yeast Beasts - Revision history

Hivanson: /* Week 15 */ 14 & 15

2024-05-03T17:44:08Z

‎Week 15: 14 & 15

Hivanson: /* Week 14 */ delete wk 14 header

2024-05-03T17:43:54Z

‎Week 14: delete wk 14 header

Hivanson: /* Hailey's Reflection [Quality Assurance] */ signed it

2024-05-03T17:43:23Z

‎Hailey's Reflection [Quality Assurance]: signed it

Hivanson: /* Week 15 */ team reflection

2024-05-03T17:43:08Z

‎Week 15: team reflection

Kmill104: /* Charlotte's Reflection Week 14/15: */ uploading weeks 14/15 reflection

2024-05-03T04:53:20Z

‎Charlotte's Reflection Week 14/15:: uploading weeks 14/15 reflection

Asandle1: /* Charlotte's Reflection Week 14/15: */ added andrew section

2024-05-03T02:29:30Z

‎Charlotte's Reflection Week 14/15:: added andrew section

Ckapla12: finishing reflection

2024-05-03T02:21:20Z

finishing reflection

Msymond1: /* Dean's Reflection */ added spaec

2024-05-03T02:05:35Z

‎Dean's Reflection: added spaec

Msymond1: /* Week 15 */ added my reflection

2024-05-03T02:05:21Z

‎Week 15: added my reflection

Kmill104: adding deliverables page

2024-05-02T22:19:32Z

adding deliverables page

@@ Line 57: / Line 57: @@
 [[User:Ckapla12|Ckapla12]] ([[User talk:Ckapla12|talk]]) 14:00, 18 April 2024 (PDT)
-===Week 15===
+===Weeks 14 and 15===
 ====[[User:Hivanson|Hailey's]] Reflection [Quality Assurance]====
 *During weeks 14 and 15, Charlotte, Katie, and I completed milestones 3-5. I oversaw what they did and helped complete all tasks on the shared Excel file, and communicated with the coder/designers about what was needed from them to finish the database. From there, the whole team worked to complete all of the deliverables.

@@ Line 57: / Line 57: @@
 [[User:Ckapla12|Ckapla12]] ([[User talk:Ckapla12|talk]]) 14:00, 18 April 2024 (PDT)
 ===Week 15===
 ====[[User:Hivanson|Hailey's]] Reflection [Quality Assurance]====

@@ Line 63: / Line 63: @@
 *I thought it was still working well to split up, with Natalija going with the coder/designers and me going with data analysis. It felt easier to split up the work for the final project deliverables this way as well. It also worked well to use the online shared Excel file.
 *It did not work to not assign people exact things that they were doing for the final project deliverables. It is also difficult to enforce deadlines and quality standards for work.
 ====Dean's Reflection====

@@ Line 59: / Line 59: @@
 ===Week 14===
 ===Week 15===
 ====Dean's Reflection====
 # This week and last week, the entire group and I completed milestones 3-6, as well as the rest of the deliverables for the final project.

← Older revision		Revision as of 04:53, 3 May 2024
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	[[User:Ckapla12\|Ckapla12]] ([[User talk:Ckapla12\|talk]]) 19:21, 2 May 2024 (PDT)		[[User:Ckapla12\|Ckapla12]] ([[User talk:Ckapla12\|talk]]) 19:21, 2 May 2024 (PDT)
		+
		+	====Katie's Reflection Weeks 14/15====
		+	Due to the wiki being down during Week 14, we had to combine our reflections for Week 14/15 into one. During Week 14, Charlotte, Hailey, and I worked on completing milestone 3 on the Data Analysts page, which contained instructions on how to complete the ANOVA analysis on our new Log2 transformed data. After determining our suitable cut-off p-value, we filtered our data to fit that value. We then worked on completing Milestone 4, which involved clustering with stem and then putting that data into YEASTRACT. More detailed instructions can be seen on our Data Analysts Week 14 journal entry. We had a better experience of working together this week. With the ANOVA data, we were able to use Microsoft Excel online and work at the same time to compute our ANOVA values. We still had some trouble with divvying up the steps for obtaining our stem and YEASTRACT data, as only one person could use their computer to run the data through these programs. During Week 15, we worked with Dean to complete Milestone 5, who helped design queries to obtain our GRNmap input data. Again, a more detailed description of what was done can be seen on our Data Analysts Week 15 and the Coder's individual journal pages. After the input data was sent to Dr. Dahlquist, she was able to run GRNmap and upload the output data. Once this was done, we analyzed our results and worked as a group to complete our presentation, the group report, and uploaded all of the deliverables that were outlined by Dr. Dahlquist. We had some trouble coordinating a time that would work for everybody to meet, but we were able to work both in person and virtually to complete everything for the project. If I were to do this project again, I would try to have organized our time just a little bit better, as we were completing this during finals week and had limited opportunities.

	===Andrew's Section===		===Andrew's Section===

← Older revision		Revision as of 02:29, 3 May 2024
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	[[User:Ckapla12\|Ckapla12]] ([[User talk:Ckapla12\|talk]]) 19:21, 2 May 2024 (PDT)		[[User:Ckapla12\|Ckapla12]] ([[User talk:Ckapla12\|talk]]) 19:21, 2 May 2024 (PDT)
		+
		+	===Andrew's Section===
		+	1. What worked?
		+
		+	Everything, “worked” but we noticed we could save time by adding the gene name and systematic name both on the gene table.
		+
		+	2. What didn't work?
		+
		+	The class website did not work.
		+
		+	3. What will I do next to fix what didn't work?
		+
		+	I don't have a fix but it meant that I took notes and did not have them save, so I lost some of my detailed notes on the methods for the past week. I am trying to determine what I would have saved them as.

@@ Line 74: / Line 74: @@
 # Note that you will be directed to add specific information to your team's pages in the individual portion of the assignment for this and future weeks.
-{{Yeast_Beasts}}
+====Charlotte's Reflection Week 14/15:====
-[[Template:Yeast_Beasts]]
+[[User:Kmill104| Katherine Miller]] and I, being the data analysts, worked with Quality Assurance [[User:Hivanson| Hailey Ivanson]] to complete Milestone 3 and Milestone 4 in person for week 14. [[User:Kmill104| Katherine Miller]] [[User:Hivanson| Hailey Ivanson]] and I to complete Milestone 2 and Milestone 3 in person. We created our ANOVA sheet and calculated the Bonferroni and B&H values, obtaining our needed p-values, and we also performed a sanity check. We then created a CHP_STEM file to filter the correct BH values to p>0.05, getting rid of any div errors. We saved this as a text file and proceeded to work on our GO and Gene tables. We found 7 significant profiles within profile 41. We had issues creating the queries for Miestone 5, so [[User:Msymond1| Dean Symonds]] assisted us in creating the queries needed to run GRNmap. What worked since we had experience from previous assignments, creating our CHP_stem file, filtering p-values, and choosing our transcription factors did not raise too many questions. What we struggled with was creating the queries needed for Dr. Dahlquist to run the GRNmap. Without Dean's help, we could not have done this on our own. To fix what we had issues with, it would have been easier if all six of us could meet at the same time, although it is understandable due to varying schedules.

@@ Line 65: / Line 65: @@
 ## The things that did not work well were the collaboration on running the queries in the coders/designers since Andrew first tried doing it in a much more complicated way that required typing all of the syntax in the SQL mode and there was little to no communication between us on how these were done or what needs to be done in the future.
 ## To fix these issues, I made sure that for the rest of the project we all collaborated and communicated well for the final presentation and project.
 # Each person needs to write a short executive summary of that person's progress on the project for the week, with links to the relevant individual journal pages (which will have more detailed information).

← Older revision		Revision as of 22:19, 2 May 2024
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	[[Media:Yeast_Beasts_Presentation.pdf \| Final version of presentation]]		[[Media:Yeast_Beasts_Presentation.pdf \| Final version of presentation]]
		+
		+	[[Yeast Beasts Deliverables]]

	==Week Reflections==		==Week Reflections==